Please cite if you are using the high-MOI functionality.

Barry, T., Wang, X., Morris, J. A., Roeder, K., & Katsevich, E. (2021). SCEPTRE improves calibration and sensitivity in single-cell CRISPR screen analysis. Genome Biology, 22(1), 1-19.

Please cite if you are using the 'mixture' gRNA assignment method.

Barry, T., Roeder, K., & Katsevich, E. (2024). Exponential family measurement error models for single-cell CRISPR screens. Biostatistics, kxae010.

Please cite if you are using the low-MOI functionality.

Barry, T., Mason, K., Roeder, K., & Katsevich, E. (2024). Robust differential expression testing for single-cell CRISPR screens at low multiplicity of infection. Genome Biology, 25(124), 1-30.

Corresponding BibTeX entries:

  @Article{,
    author = {Timothy Barry and Xuran Wang and John A. Morris and
      Kathryn Roeder and Eugene Katsevich},
    title = {SCEPTRE improves calibration and sensitivity in
      single-cell CRISPR screen analysis},
    journal = {Genome Biology},
    year = {2021},
    volume = {22},
    number = {1},
    pages = {1--19},
    publisher = {Springer Nature},
    doi = {10.1186/s13059-021-02545-2},
    url =
      {https://link.springer.com/article/10.1186/s13059-021-02545-2},
  }

  @Article{,
    author = {Timothy Barry and Kathryn Roeder and Eugene Katsevich},
    title = {Exponential family measurement error models for
      single-cell CRISPR screens},
    journal = {Biostatistics},
    year = {2024},
    pages = {kxae010},
    publisher = {Oxford University Press},
    doi = {10.1093/biostatistics/kxae010},
    url = {https://doi.org/10.1093/biostatistics/kxae010},
  }

  @Article{,
    author = {Timothy Barry and Kaishu Mason and Kathryn Roeder and
      Eugene Katsevich},
    title = {Robust differential expression testing for single-cell
      CRISPR screens at low multiplicity of infection},
    journal = {Genome Biology},
    year = {2024},
    volume = {25},
    number = {124},
    pages = {1--30},
    publisher = {Springer Nature},
    doi = {10.1186/s13059-024-03254-2},
    url =
      {https://link.springer.com/article/10.1186/s13059-024-03254-2},
  }